Read in SF trees data

sf_trees <- read.csv(here("data", "sf_trees", "sf_trees.csv"))

Basic wrangling reminders

Find the top 5 highest observations of trees by legal_status, do some wrangling, make a graph.

top_5_status <- sf_trees %>% 
  count(legal_status) %>% # recall this counts observation based on variables; combines group_by, summarize, and n
  drop_na(legal_status) %>% 
  rename(tree_count = n) %>% 
  relocate(tree_count) %>% # moves tree_count to the first column
  slice_max(tree_count, n = 5) # takes top 5 of tree_count

Make a graph

Make a graph of those top 5 observations by legal status.

ggplot(data = top_5_status, aes(x = fct_reorder(legal_status, tree_count), y = tree_count)) + # reorders the graph by tree_count instead of alphabetically
  geom_col() +
  labs(x = "Legal Status", y = "Tree Count", title = "Counts of Trees by Legal Status") +
  coord_flip() +
  theme_minimal()

A few more data wrangling refresher examples

Only want to keep observations (rows) for Blackwood Acacia trees.

blackwood_acacia <- sf_trees %>% 
  filter(str_detect(species, "Blackwood Acacia")) %>% # look within the data and filter so that within species variable, the Blackwood Acacia tree is detected; useful if the observation doesn't directly match (like here, where we also have the scientific)
  select(legal_status, date, latitude, longitude)

ggplot(data = blackwood_acacia, aes(x = longitude, y = latitude)) + 
  geom_point() 
## Warning: Removed 27 rows containing missing values (geom_point).

# gives us a preview of what the map will look like; doesn't register as actual spatial coordinates, however

tidyr::separate() and unite() functions

Useful for combining or separating columns

sf_trees_sep <- sf_trees %>% 
  separate(species, 
           into = c("spp_scientific","spp_common"), 
           sep = "::")

Example: tidyr::unite()

sf_trees_unit <- sf_trees %>% 
  unite("id_status", 
        tree_id:legal_status,
        sep = "_cool!_")

Make some actual maps of Blackwood Acacia trees in SF

st_as_sf() to convert the latitude and longitude to spatial coordinates.

blackwood_acacia_sp <- blackwood_acacia %>% 
  drop_na(longitude, latitude) %>% 
  st_as_sf(coords = c("longitude", "latitude")) # write down the variable name storing longitude and latitude

st_crs(blackwood_acacia_sp) = 4326 # from European Petroleum Reference Group for the coordinate reference system

ggplot(data = blackwood_acacia_sp) +
  geom_sf(color = "darkgreen")

Read in SF roads shapefile:

sf_map <- read_sf(here("data", "sf_map", "tl_2017_06075_roads.shp"))

st_transform(sf_map, 4326)
## Simple feature collection with 4087 features and 4 fields
## geometry type:  LINESTRING
## dimension:      XY
## bbox:           xmin: -122.5136 ymin: 37.70813 xmax: -122.3496 ymax: 37.83213
## geographic CRS: WGS 84
## # A tibble: 4,087 x 5
##    LINEARID   FULLNAME     RTTYP MTFCC                                  geometry
##  * <chr>      <chr>        <chr> <chr>                          <LINESTRING [°]>
##  1 110498938… Hwy 101 S O… M     S1400 (-122.4041 37.74842, -122.404 37.7483, -…
##  2 110498937… Hwy 101 N o… M     S1400 (-122.4744 37.80691, -122.4746 37.80684,…
##  3 110366022… Ludlow Aly … M     S1780 (-122.4596 37.73853, -122.4596 37.73845,…
##  4 110608181… Mission Bay… M     S1400 (-122.3946 37.77082, -122.3929 37.77092,…
##  5 110366689… 25th Ave N   M     S1400 (-122.4858 37.78953, -122.4855 37.78935,…
##  6 110368970… Willard N    M     S1400 (-122.457 37.77817, -122.457 37.77812, -…
##  7 110368970… 25th Ave N   M     S1400 (-122.4858 37.78953, -122.4858 37.78952,…
##  8 110498933… Avenue N     M     S1400 (-122.3643 37.81947, -122.3638 37.82064,…
##  9 110368970… 25th Ave N   M     S1400  (-122.4854 37.78983, -122.4858 37.78953)
## 10 110367749… Mission Bay… M     S1400 (-122.3865 37.77086, -122.3878 37.77076,…
## # … with 4,077 more rows
ggplot(data = sf_map) +
  geom_sf()

Combine Blackwood Acacia tree observations and SF roads map:

ggplot() +
  geom_sf(data = sf_map, size = 0.1, color = "darkgray") +
  geom_sf(data = blackwood_acacia_sp, size = 0.5, color = "darkgreen") +
  theme_void()

Now an interactive map:

tmap_mode("view")
## tmap mode set to interactive viewing
tm_shape(blackwood_acacia_sp) +
  tm_dots()